Research output per year
Research output per year
- 48 results
Search results
-
2023
Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)
PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1078 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Pan-cancer analysis of whole genomes (Nature, (2020), 578, 7793, (82-93), 10.1038/s41586-020-1969-6)
The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E39Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Author Correction: Supervised learning of high-confidence phenotypic subpopulations from single-cell data (Nature Machine Intelligence, (2023), 5, 5, (528-541), 10.1038/s42256-023-00656-y)
Ren, T., Chen, C., Danilov, A. V., Liu, S., Guan, X., Du, S., Wu, X., Sherman, M. H., Spellman, P. T., Coussens, L. M., Adey, A. C., Mills, G. B., Wu, L. Y. & Xia, Z., Jun 2023, In: Nature Machine Intelligence. 5, 6, p. 676 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing (Nature Genetics, (2020), 52, 3, (331-341), 10.1038/s41588-019-0576-7)
PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1076 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: The amniotic fluid proteome changes across gestation in humans and rhesus macaques (Scientific Reports, (2023), 13, 1, (17039), 10.1038/s41598-023-44125-3)
Shorey-Kendrick, L. E., Crosland, B. A., Spindel, E. R., McEvoy, C. T., Wilmarth, P. A., Reddy, A. P., Zientek, K. D., Roberts, V. H. J., D’Mello, R. J., Ryan, K. S., Olyaei, A. F., Hagen, O. L., Drake, M. G., McCarty, O. J. T., Scottoline, B. P. & Lo, J. O., Dec 2023, In: Scientific Reports. 13, 1, 17640.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: The evolutionary history of 2,658 cancers (Nature, (2020), 578, 7793, (122-128), 10.1038/s41586-019-1907-7)
PCAWG Evolution & Heterogeneity Working Group & PCAWG Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E42Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Author Correction: The landscape of viral associations in human cancers (Nature Genetics, (2020), 52, 3, (320-330), 10.1038/s41588-019-0558-9)
PCAWG Pathogens & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1077 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: The repertoire of mutational signatures in human cancer (Nature, (2020), 578, 7793, (94-101), 10.1038/s41586-020-1943-3)
PCAWG Mutational Signatures Working Group & PCAWG Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E41Research output: Contribution to journal › Comment/debate › peer-review
Open Access2 Scopus citations -
Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes (Nature, (2020), 578, 7793, (102-111), 10.1038/s41586-020-1965-x)
PCAWG Structural Variation Working Group, PCAWG Consortium & PCAWG Drivers and Functional Interpretation Working Group, Feb 16 2023, In: Nature. 614, 7948, p. E40Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Author Correction: Genomic basis for RNA alterations in cancer (Nature, (2020), 578, 7793, (129-136), 10.1038/s41586-020-1970-0)
PCAWG Transcriptome Core Group, PCAWG Transcriptome Working Group & PCAWG Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E37Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Patterns of somatic structural variation in human cancer genomes (Nature, (2020), 578, 7793, (112-121), 10.1038/s41586-019-1913-9)
PCAWG Structural Variation Working Group & PCAWG Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E38Research output: Contribution to journal › Comment/debate › peer-review
Open Access2 Scopus citations -
Author Correction: Butler enables rapid cloud-based analysis of thousands of human genomes (Nature Biotechnology, (2020), 38, 3, (288-292), 10.1038/s41587-019-0360-3)
PCAWG Technical Working Group & PCAWG Consortium, Apr 2023, In: Nature biotechnology. 41, 4, p. 577 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)
PCAWG Consortium, May 2023, In: Nature genetics. 55, 5, p. 892 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition (Nature Genetics, (2020), 52, 3, (306-319), 10.1038/s41588-019-0562-0)
PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1080 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer (Nature Genetics, (2020), 52, 3, (294-305), 10.1038/s41588-019-0564-y)
PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1079 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Modeling collective cell behavior in cancer: Perspectives from an interdisciplinary conversation
Adler, F. R., Anderson, A. R. A., Bhushan, A., Bogdan, P., Bravo-Cordero, J. J., Brock, A., Chen, Y., Cukierman, E., DelGiorno, K. E., Denis, G. V., Ferrall-Fairbanks, M. C., Gartner, Z. J., Germain, R. N., Gordon, D. M., Hunter, G., Jolly, M. K., Karacosta, L. G., Mythreye, K., Katira, P., Kulkarni, R. P., & 21 others, Apr 19 2023, In: Cell Systems. 14, 4, p. 252-257 6 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access2 Scopus citations -
Publisher Correction: OregonFluor enables quantitative intracellular paired agent imaging to assess drug target availability in live cells and tissues (Nature Chemistry, (2023), 15, 5, (729-739), 10.1038/s41557-023-01173-6)
Wang, L. G., Montaño, A. R., Combs, J. R., McMahon, N. P., Solanki, A., Gomes, M. M., Tao, K., Bisson, W. H., Szafran, D. A., Samkoe, K. S., Tichauer, K. M. & Gibbs, S. L., May 2023, In: Nature Chemistry. 15, 5, p. 740 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Publisher Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)
PCAWG Consortium, May 2023, In: Nature genetics. 55, 5, p. 893 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Pumping up the volume
Galbraith, C. G., Feb 6 2023, In: Journal of Cell Biology. 222, 2, e202212042.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Shooting for multiplexed pathology with Orion
Anderson, A. N. & Gibbs, S. L., Jul 2023, In: Nature Cancer. 4, 7, p. 930-932 3 p.Research output: Contribution to journal › Comment/debate › peer-review
1 Scopus citations -
2022
Author Correction: Perspectives on ENCODE (Nature, (2020), 583, 7818, (693-698), 10.1038/s41586-020-2449-8)
The ENCODE Project Consortium, May 12 2022, In: Nature. 605, 7909, p. E4Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (Nature, (2020), 583, 7818, (699-710), 10.1038/s41586-020-2493-4)
The ENCODE Project Consortium, May 12 2022, In: Nature. 605, 7909, p. E3Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: Myeloid lineage enhancers drive oncogene synergy in CEBPA/CSF3R mutant acute myeloid leukemia (Nature Communications, (2019), 10, 1, (5455), 10.1038/s41467-019-13364-2)
Braun, T. P., Okhovat, M., Coblentz, C., Carratt, S. A., Foley, A., Schonrock, Z., Curtiss, B. M., Nevonen, K., Davis, B., Garcia, B., LaTocha, D., Weeder, B. R., Grzadkowski, M. R., Estabrook, J. C., Manning, H. G., Watanabe-Smith, K., Jeng, S., Smith, J. L., Leonti, A. R., Ries, R. E., & 8 others, Dec 2022, In: Nature communications. 13, 1, 3471.Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Erratum: Recombinant Lloviu virus as a tool to study viral replication and host responses (PLoS Pathogens (2022) 18:2 (e1010268) DOI: 10.1371/journal.ppat.1010268)
Hume, A. J., Heiden, B., Olejnik, J., Suder, E. L., Ross, S., Scoon, W. A., Bullitt, E., Ericsson, M., White, M. R., Turcinovic, J., Thao, T. T. N., Hekman, R. M., Kaserman, J. E., Huang, J., Alysandratos, K. D., Toth, G. E., Jakab, F., Kotton, D. N., Wilson, A. A., Emili, A., & 5 others, Jun 2022, In: PLoS pathogens. 18, 6, e1010659.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Implications of the first complete human genome assembly
Alkan, C., Carbone, L., Dennis, M., Ernst, J., Evrony, G., Girirajan, S., Leung, D. C. Y., Cheng, C. C. Y., MacAlpine, D., Ni, T., Ramsay, M., Rowe, H., Gould, P., Enriquez-Gasca, R. & Sullivan, B., Apr 2022, In: Genome Research. 32, 4, p. 595-598 4 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access5 Scopus citations -
2021
Erratum: Investigating β-lactam drug targets in mycobacterium tuberculosis using chemical probes (ACS Infectious Diseases (2021) 7:2 (461-470) DOI: 10.1021/acsinfecdis.0c00809)
Levine, S. & Beatty, K., Apr 9 2021, In: ACS Infectious Diseases. 7, 4, p. 937 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Erratum: Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2 (Molecular Cell (2020) 80(6) (1104–1122.e9), (S1097276520308285), (10.1016/j.molcel.2020.11.028))
Hekman, R. M., Hume, A. J., Goel, R., Abo, K. M., Huang, J., Blum, B. C., Werder, R. B., Suder, E. L., Paul, I., Phanse, S., Youssef, A., Alysandratos, K. D., Padhorny, D., Ojha, S., Mora-Martin, A., Kretov, D., Ash, P. E. A., Verma, M., Zhao, J., Patten, J. J., & 30 others, Jan 7 2021, In: Molecular Cell. 81, 1, p. 212 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access11 Scopus citations -
Erratum: Computational Estimation of Microsecond to Second Atomistic Folding Times (Journal of the American Chemical Society (2019) 141:16 (6519-6526) DOI: 10.1021/jacs.8b10735)
Adhikari, U., Mostofian, B., Copperman, J., Subramanian, S. R., Petersen, A. A. & Zuckerman, D. M., May 19 2021, In: Journal of the American Chemical Society. 143, 19, p. 7588 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
2020
Author Correction: Fast and multiplexed superresolution imaging with DNA-PAINT-ERS (Nature Communications, (2020), 11, 1, (4339), 10.1038/s41467-020-18181-6)
Civitci, F., Shangguan, J., Zheng, T., Tao, K., Rames, M., Kenison, J., Zhang, Y., Wu, L., Phelps, C., Esener, S. & Nan, X., Dec 1 2020, In: Nature communications. 11, 1, 4846.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Author Correction: COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms (Scientific Data, (2020), 7, 1, (136), 10.1038/s41597-020-0477-8)
Ostaszewski, M., Mazein, A., Gillespie, M. E., Kuperstein, I., Niarakis, A., Hermjakob, H., Pico, A. R., Willighagen, E. L., Evelo, C. T., Hasenauer, J., Schreiber, F., Dräger, A., Demir, E., Wolkenhauer, O., Furlong, L. I., Barillot, E., Dopazo, J., Orta-Resendiz, A., Messina, F., Valencia, A., & 5 others, Dec 1 2020, In: Scientific Data. 7, 1, 247.Research output: Contribution to journal › Comment/debate › peer-review
Open Access2 Scopus citations -
COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms
Ostaszewski, M., Mazein, A., Gillespie, M. E., Kuperstein, I., Niarakis, A., Hermjakob, H., Pico, A. R., Willighagen, E. L., Evelo, C. T., Hasenauer, J., Schreiber, F., Dräger, A., Demir, E., Wolkenhauer, O., Furlong, L. I., Barillot, E., Dopazo, J., Orta-Resendiz, A., Messina, F., Valencia, A., & 5 others, Dec 1 2020, In: Scientific Data. 7, 1, 136.Research output: Contribution to journal › Comment/debate › peer-review
Open Access83 Scopus citations -
Erratum: Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma (Cell (2019) 179(4) (964–983.e31), (S0092867419311237), (10.1016/j.cell.2019.10.007))
Clinical Proteomic Tumor Analysis Consortium, Jan 9 2020, In: Cell. 180, 1, p. 207 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access34 Scopus citations -
Erratum: The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update (Nucleic Acids Research (2020) DOI: 10.1093/nar/gkaa434)
Jalili, V., Afgan, E., Gu, Q., Clements, D., Blankenberg, D., Goecks, J., Taylor, J. & Nekrutenko, A., Aug 20 2020, In: Nucleic acids research. 48, 14, p. 8205-8207 3 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access25 Scopus citations -
Erratum: 3′ UTR lengthening as a novel mechanism in regulating cellular senescence (Genome Research (2018) 28 (285-294) DOI: 10.1101/gr.224451.117)
Chen, M., Lyu, G., Han, M., Nie, H., Shen, T., Chen, W., Niu, Y., Song, Y., Li, X., Li, H., Chen, X., Wang, Z., Xia, Z., Li, W., Tian, X. L., Ding, C., Gu, J., Zheng, Y., Liu, X., Hu, J., & 3 others, Oct 2020, In: Genome Research. 30, 9, p. 1376 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Erratum to “siRNA therapeutics for breast cancer: recent efforts in targeting metastasis, drug resistance, and immune evasion” [Translational Research 214C (2019) 105-120](S1931524419301689)(10.1016/j.trsl.2019.08.005)
Ngamcherdtrakul, W. & Yantasee, W., Mar 2020, In: Translational Research. 217, p. 77 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Pacific northwest center for Cryo-EM: Coast-to-coast training and cryoTEM services
Lopez, C., Yoshioka, C. & Beck, L. H., 2020, (Accepted/In press) In: Microscopy and Microanalysis.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Resolving the 3D nano-architecture of the actin cytoskeleton
Galbraith, J., Aaron, J., Boehm, U., Chew, T. L. & Galbraith, C., 2020, (Accepted/In press) In: Microscopy and Microanalysis.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Undressing drug reactions, one cell at a time
Kulkarni, R. P., Feb 5 2020, In: Science translational medicine. 12, 529, eaba9015.Research output: Contribution to journal › Comment/debate › peer-review
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2019
Correction to: Structural basis for potency and promiscuity in poly(ADP-ribose) polymerase (PARP) and tankyrase inhibitors (Journal of Medicinal Chemistry (2017) 60: 4 (1262-1271) DOI: 10.1021/acs.jmedchem.6b00990)
Thorsell, A. G., Ekblad, T., Karlberg, T., Löw, M., Pinto, A. F., Trésaugues, L., Moche, M., Cohen, M. S. & Schüler, H., Jun 27 2019, In: Journal of Medicinal Chemistry. 62, 12, p. 5922 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Erratum: Correction: FGF2-FGFR1 signaling regulates release of leukemia-protective exosomes from bone marrow stromal cells (eLife (2019) 8 PII: e47174)
Javidi-Sharifi, N., Martinez, J., English, I., Joshi, S. K., Scopim-Ribeiro, R., Viola, S. K., Edwards, D. K., Agarwal, A., Lopez, C., Jorgens, D., Tyner, J. W., Druker, B. J. & Traer, E., Mar 29 2019, In: eLife. 8, e47174.Research output: Contribution to journal › Comment/debate › peer-review
Open Access1 Scopus citations -
Later is better: Corticosteroids selectively suppress early memory T cells
Kulkarni, R. P., Oct 9 2019, In: Science translational medicine. 11, 513, eaaz3711.Research output: Contribution to journal › Comment/debate › peer-review
2 Scopus citations -
2018
Correction to: LI-RADS technical requirements for CT, MRI, and contrast-enhanced ultrasound (Abdominal Radiology, (2018), 43, 1, (56-74), 10.1007/s00261-017-1325-y)
Kambadakone, A. R., Fung, A., Gupta, R. T., Hope, T. A., Fowler, K. J., Lyshchik, A., Ganesan, K., Yaghmai, V., Guimaraes, A. R., Sahani, D. V. & Miller, F. H., Jan 1 2018, In: Abdominal Radiology. 43, 1, p. 240 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access2 Scopus citations -
Erratum: Publisher Correction: Combating subclonal evolution of resistant cancer phenotypes (Nature communications (2017) 8 1 (1231))
Brady, S. W., McQuerry, J. A., Qiao, Y., Piccolo, S. R., Shrestha, G., Jenkins, D. F., Layer, R. M., Pedersen, B. S., Miller, R. H., Esch, A., Selitsky, S. R., Parker, J. S., Anderson, L. A., Dalley, B. K., Factor, R. E., Reddy, C. B., Boltax, J. P., Li, D. Y., Moos, P. J., Gray, J. W., & 8 others, Feb 5 2018, In: Nature communications. 9, 1, p. 572 1 p., 572.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Erratum: Cloud computing for genomic data analysis and collaboration (Nature reviews. Genetics (2018) 19 4 (208-219))
Langmead, B. & Nellore, A., May 1 2018, In: Nature reviews. Genetics. 19, 5, p. 325 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access21 Scopus citations -
Practical Computational Reproducibility in the Life Sciences
Grüning, B., Chilton, J., Köster, J., Dale, R., Soranzo, N., van den Beek, M., Goecks, J., Backofen, R., Nekrutenko, A. & Taylor, J., Jun 27 2018, In: Cell Systems. 6, 6, p. 631-635 5 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access68 Scopus citations -
Publisher Correction: A Multi-Institutional Comparison of Dynamic Contrast-Enhanced Magnetic Resonance Imaging Parameter Calculations (Scientific Reports (2017) DOI: 10.1038/s41598-017-11554-w)
Ger, R. B., Mohamed, A. S. R., Awan, M. J., Ding, Y., Li, K., Fave, X. J., Beers, A. L., Driscoll, B., Elhalawani, H., Hormuth, D. A., Van Houdt, P. J., He, R., Zhou, S., Mathieu, K. B., Li, H., Coolens, C., Chung, C., Bankson, J. A., Huang, W., Wang, J., & 12 others, Dec 1 2018, In: Scientific Reports. 8, 1, 4422.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
2017
Erratum: Correction: Human mutations in integrator complex subunits link transcriptome integrity to brain development (PLoS genetics (2017) 13 5 (e1006809))
Oegema, R., Baillat, D., Schot, R., van Unen, L. M., Brooks, A., Kia, S. K., Hoogeboom, A. J. M., Xia, Z., Li, W., Cesaroni, M., Lequin, M. H., van Slegtenhorst, M., Dobyns, W. B., de Coo, I. F. M., van den Berg, D., Verheijen, F. W., Kremer, A., van der Spek, P. J., Heijsman, D., Wagner, E. J., & 2 others, Aug 1 2017, In: PLoS genetics. 13, 8, p. e1006923Research output: Contribution to journal › Comment/debate › peer-review
Open Access3 Scopus citations -
2016
Erratum to Dermal delivery of HSP47 siRNA with NOX4-modulating mesoporous silica-based nanoparticles for treating fibrosis [Biomaterials, 66, (2015), 41-52] DOI:10.1016/j.biomaterials.2015.07.005
Morry, J., Ngamcherdtrakul, W., Gu, S., Goodyear, S. M., Castro, D. J., Reda, M. M., Sangvanich, T. & Yantasee, W., Jan 2016, In: Biomaterials. 74, p. 292 1 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access